BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0085.0003.p
         (222 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1 compo...   422   e-119
gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1 compo...   175   2e-45

>gi|300310785|ref|YP_003774877.1| pyruvate dehydrogenase E1
           component protein [Herbaspirillum seropedicae SmR1]
          Length = 898

 Score =  422 bits (1085), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 202/221 (91%), Positives = 214/221 (96%)

Query: 1   VIIHDGLRRMVGNQEDVFYYITVMNENYAHPGIKAGQEEGILKGLYLLNESGKKNKLRVQ 60
           VIIHDGLRRMV NQEDVFYYITVMNENY HPGIK GQEEGI+KGLYLLNE GK+NKLRVQ
Sbjct: 677 VIIHDGLRRMVANQEDVFYYITVMNENYGHPGIKPGQEEGIIKGLYLLNEGGKQNKLRVQ 736

Query: 61  LLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNMLHPADAAKKSH 120
           LLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNMLHPA+A KKS+
Sbjct: 737 LLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNMLHPAEAPKKSY 796

Query: 121 FEQSMEGTEGPIVVSTDYMRTYAEQVRAFVPKGRTYKVLGTDGYGRSDTRAKLREFFEVD 180
           FEQS+EG+EGPIVVSTDYMRTYAEQVRAFVPKGR+YKVLGTDGYGRSDTRAKLREFFEV+
Sbjct: 797 FEQSLEGSEGPIVVSTDYMRTYAEQVRAFVPKGRSYKVLGTDGYGRSDTRAKLREFFEVN 856

Query: 181 RHYVTVAALKSLADEGKIKPSVVAEAIAKYGINPEKPNPVT 221
           R++VTVAALKSLADEGKIKP VVA+AIAKYGI+P KPNPVT
Sbjct: 857 RYFVTVAALKSLADEGKIKPEVVAQAIAKYGIDPNKPNPVT 897


>gi|300313265|ref|YP_003777357.1| pyruvate dehydrogenase E1
           component protein [Herbaspirillum seropedicae SmR1]
          Length = 893

 Score =  175 bits (444), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 96/217 (44%), Positives = 139/217 (64%), Gaps = 10/217 (4%)

Query: 1   VIIHDGLRRMVGNQEDVFYYITVMNENYAHPGIKAGQEEGILKGLYLLNESGKKNKLRVQ 60
           VI+ +G+RRM+   +DVFYYITV NEN A P +  G ++GIL+GLY L    +K + + +
Sbjct: 682 VILDEGMRRMMERGDDVFYYITVTNENEAQPSLPEGVQDGILRGLYCL---ARKPQAQAR 738

Query: 61  LLGSGTILREVIAAADLLRDDWKVDADVWSAPSFTLLARDGQDVERWNMLHPADAAKKSH 120
           LLGSG IL+E +AAA LL+  W+++A+VWS  S+T LARDG   +R   L  A +A   +
Sbjct: 739 LLGSGPILKEAVAAAALLQQHWQIEAEVWSVTSYTELARDGVAAQRAQRL--AGSAALPY 796

Query: 121 FEQSMEGTEGPIVVSTDYMRTYAEQVRAFVPKGRTYKVLGTDGYGRSDTRAKLREFFEVD 180
             Q ++G+  P++  +DY+RT  E +RAFVP    Y  LGTDG+GRSDTR  LR+FFE+D
Sbjct: 797 VTQQLQGSAVPVIAVSDYIRTLPESIRAFVPA--PYVTLGTDGFGRSDTRVNLRDFFEID 854

Query: 181 RHYVTVAALKSLADEGKIKPSVVAEAIAKYGINPEKP 217
             ++   AL  +  + + +   + EA    GI+  KP
Sbjct: 855 ARWIAYTALCEVWGDDRAR---LQEAARTLGIDTAKP 888


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.317    0.135    0.392 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 730,225
Number of extensions: 31145
Number of successful extensions: 91
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 2
Length of query: 222
Length of database: 1,619,870
Length adjustment: 82
Effective length of query: 140
Effective length of database: 1,231,600
Effective search space: 172424000
Effective search space used: 172424000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 129 (54.3 bits)